Figure 3

Scatter plots. The left plot shows a heat-map of normalized SNP intensities resulting from the CNAM normalization (x-axis) and APT normalization used for the GADA analysis (y-axis) for a randomly chosen individual. There is a striking lack of correlation between the results of the two normalization routines. The right plot is a scatter plot of resulting copy number calls for randomly chosen (but representative) regions along the genome. Again, we note a striking lack of agreement between calls resulting from CNAM and GADA.